SCOPe 2.07: Protein: Exonuclease domain of family B DNA polymerases

Lineage for Protein: Exonuclease domain of family B DNA polymerases

Root: SCOPe 2.07
Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
Fold c.55: Ribonuclease H-like motif [53066] (7 superfamilies)
3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest
Superfamily c.55.3: Ribonuclease H-like [53098] (16 families)
consists of one domain of this fold
Family c.55.3.5: DnaQ-like 3'-5' exonuclease [53118] (17 proteins)
contains Pfam PF00929
Protein Exonuclease domain of family B DNA polymerases [53125] (8 species)
elaborated with additional structures and the N-terminal subdomain

Species:

Bacteriophage RB69 [TaxId:12353] [53127] (93 PDB entries)
additional N-terminal subdomain contains rudimental OB-fold and rudimental ferredoxin-like fold
1. Domain for 1clq:
  - Domain d1clqa1: 1clq A:1-375 [33717]
    Other proteins in same PDB: d1clqa2
    protein/DNA complex; complexed with ca, gdp
2. Domain for 1ig9:
  - Domain d1ig9a1: 1ig9 A:1-375 [62367]
    Other proteins in same PDB: d1ig9a2
    protein/DNA complex; complexed with ca, ttp
3. Domain for 1ih7:
  - Domain d1ih7a1: 1ih7 A:1-375 [62375]
    Other proteins in same PDB: d1ih7a2
    complexed with gmp, k
4. Domains for 1q9x:
  1. Domain d1q9xa1: 1q9x A:1-375 [96328]
    Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
    protein/DNA complex; complexed with 3dr, ca, dgp, doc
  2. Domain d1q9xb1: 1q9x B:1-375 [96330]
    Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
    protein/DNA complex; complexed with 3dr, ca, dgp, doc
  3. Domain d1q9xc1: 1q9x C:1-375 [96332]
    Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
    protein/DNA complex; complexed with 3dr, ca, dgp, doc
  4. Domain d1q9xd1: 1q9x D:1-375 [96334]
    Other proteins in same PDB: d1q9xa2, d1q9xb2, d1q9xc2, d1q9xd2
    protein/DNA complex; complexed with 3dr, ca, dgp, doc
5. Domain for 1q9y:
  - Domain d1q9ya1: 1q9y A:4-375 [96336]
    Other proteins in same PDB: d1q9ya2, d1q9ya3
    protein/DNA complex; complexed with ca, dcp
6. Domain for 1rv2:
  - Domain d1rv2d3: 1rv2 D:1-375 [344512]
    Other proteins in same PDB: d1rv2d4
    automated match to d1ig9a1
    protein/DNA complex
7. Domains for 1waf:
  1. Domain d1wafa1: 1waf A:1-375 [33719]
    Other proteins in same PDB: d1wafa2, d1wafb2
    complexed with gmp
  2. Domain d1wafb1: 1waf B:1-375 [33720]
    Other proteins in same PDB: d1wafa2, d1wafb2
    complexed with gmp
8. Domain for 1waj:
  - Domain d1waja1: 1waj A:1-375 [33718]
    Other proteins in same PDB: d1waja2
    complexed with 5gp
9. Domain for 2atq:
  - Domain d2atqa1: 2atq A:1-375 [127303]
    Other proteins in same PDB: d2atqa2, d2atqb1
    automatically matched to d1clqa1
    protein/DNA complex; complexed with gdp, zn
10. Domains for 2dtu:
  1. Domain d2dtua1: 2dtu A:1-375 [230656]
    Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
    automated match to d1ih7a1
    protein/DNA complex
  2. Domain d2dtub1: 2dtu B:1-375 [230654]
    Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
    automated match to d1ih7a1
    protein/DNA complex
  3. Domain d2dtuc1: 2dtu C:1-375 [230655]
    Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
    automated match to d1ih7a1
    protein/DNA complex
  4. Domain d2dtud1: 2dtu D:1-375 [230657]
    Other proteins in same PDB: d2dtua2, d2dtub2, d2dtuc2, d2dtud2
    automated match to d1ih7a1
    protein/DNA complex
11. Domains for 2dy4:
  1. Domain d2dy4a1: 2dy4 A:1-375 [131882]
    Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
    automated match to d1q9xa1
    protein/DNA complex
  2. Domain d2dy4b1: 2dy4 B:1-375 [131884]
    Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
    automated match to d1q9xa1
    protein/DNA complex
  3. Domain d2dy4c1: 2dy4 C:1-375 [131886]
    Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
    automated match to d1ig9a1
    protein/DNA complex
  4. Domain d2dy4d1: 2dy4 D:1-375 [131888]
    Other proteins in same PDB: d2dy4a2, d2dy4b2, d2dy4c2, d2dy4d2
    automated match to d1ig9a1
    protein/DNA complex
12. Domains for 2oyq:
  1. Domain d2oyqa1: 2oyq A:1-375 [149070]
    Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
    automated match to d2ozma1
    protein/DNA complex; complexed with mg, n5p
  2. Domain d2oyqb1: 2oyq B:1-375 [149072]
    Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
    automated match to d1ig9a1
    protein/DNA complex; complexed with mg, n5p
  3. Domain d2oyqc1: 2oyq C:1-375 [149074]
    Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
    automated match to d1ig9a1
    protein/DNA complex; complexed with mg, n5p
  4. Domain d2oyqd1: 2oyq D:2-375 [149076]
    Other proteins in same PDB: d2oyqa2, d2oyqb2, d2oyqc2, d2oyqd2
    automated match to d1ig9a1
    protein/DNA complex; complexed with mg, n5p
13. Domain for 2ozm:
  - Domain d2ozma1: 2ozm A:1-375 [149115]
    Other proteins in same PDB: d2ozma2
    automated match to d1q9xa1
    protein/DNA complex; complexed with mg, n5p
14. Domain for 2ozs:
  - Domain d2ozsa1: 2ozs A:1-375 [149127]
    Other proteins in same PDB: d2ozsa2
    automated match to d1q9xa1
    protein/DNA complex; complexed with dtp, mg
15. Domains for 2p5g:
  1. Domain d2p5ga1: 2p5g A:1-375 [149240]
    Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
    automated match to d1q9xa1
    protein/DNA complex
  2. Domain d2p5gb1: 2p5g B:1-375 [149242]
    Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
    automated match to d1ig9a1
    protein/DNA complex
  3. Domain d2p5gc1: 2p5g C:1-375 [149244]
    Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
    automated match to d1ig9a1
    protein/DNA complex
  4. Domain d2p5gd1: 2p5g D:2-375 [149246]
    Other proteins in same PDB: d2p5ga2, d2p5gb2, d2p5gc2, d2p5gd2
    automated match to d1ig9a1
    protein/DNA complex
16. Domains for 2p5o:
  1. Domain d2p5oa1: 2p5o A:1-375 [139498]
    Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
    automatically matched to d1clqa1
    protein/DNA complex
  2. Domain d2p5ob1: 2p5o B:1-375 [139500]
    Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
    automatically matched to d1clqa1
    protein/DNA complex
  3. Domain d2p5oc1: 2p5o C:1-375 [139502]
    Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
    automatically matched to d1clqa1
    protein/DNA complex
  4. Domain d2p5od1: 2p5o D:1-375 [139504]
    Other proteins in same PDB: d2p5oa2, d2p5ob2, d2p5oc2, d2p5od2
    automatically matched to d1clqa1
    protein/DNA complex
17. Domain for 3cfo:
  - Domain d3cfoa1: 3cfo A:1-375 [231886]
    Other proteins in same PDB: d3cfoa2, d3cfoa3
    automated match to d1ih7a1
    complexed with gmp, so4; mutant
18. Domain for 3cq8:
  - Domain d3cq8a1: 3cq8 A:1-375 [156927]
    Other proteins in same PDB: d3cq8a2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, gol, na, ttp; mutant
19. Domains for 3l8b:
  1. Domain d3l8ba1: 3l8b A:1-375 [232820]
    Other proteins in same PDB: d3l8ba2, d3l8bb2
    automated match to d1ih7a1
    protein/DNA complex; complexed with so4
  2. Domain d3l8bb1: 3l8b B:1-375 [232821]
    Other proteins in same PDB: d3l8ba2, d3l8bb2
    automated match to d1ih7a1
    protein/DNA complex; complexed with so4
20. Domain for 3lds:
  - Domain d3ldsa1: 3lds A:1-375 [247450]
    Other proteins in same PDB: d3ldsa2
    automated match to d3uiqa1
    protein/DNA complex; complexed with dtp, mn, so4
21. Domain for 3lzi:
  - Domain d3lzia1: 3lzi A:1-375 [232866]
    Other proteins in same PDB: d3lzia2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dtp
22. Domain for 3lzj:
  - Domain d3lzja1: 3lzj A:1-375 [232867]
    Other proteins in same PDB: d3lzja2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, ctp
23. Domain for 3nae:
  - Domain d3naea1: 3nae A:1-375 [247869]
    Other proteins in same PDB: d3naea2
    automated match to d3lzja1
    protein/DNA complex; complexed with ca, dtp
24. Domain for 3nci:
  - Domain d3ncia1: 3nci A:1-375 [213877]
    Other proteins in same PDB: d3ncia2
    automated match to d1q9xa1
    protein/DNA complex; complexed with ca, dcp
25. Domain for 3ndk:
  - Domain d3ndka1: 3ndk A:1-375 [247887]
    Other proteins in same PDB: d3ndka2
    automated match to d3lzja1
    protein/DNA complex; complexed with ca, dcp
26. Domain for 3ne6:
  - Domain d3ne6a1: 3ne6 A:1-375 [233010]
    Other proteins in same PDB: d3ne6a2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dcp
27. Domain for 3ngi:
  - Domain d3ngia1: 3ngi A:1-375 [247915]
    Other proteins in same PDB: d3ngia2
    automated match to d3lzja1
    protein/DNA complex; complexed with ca, ttp
28. Domain for 3nhg:
  - Domain d3nhga1: 3nhg A:1-375 [247933]
    Other proteins in same PDB: d3nhga2
    automated match to d3ne6a1
    protein/DNA complex; complexed with ca, ttp
29. Domain for 3qes:
  - Domain d3qesa1: 3qes A:1-375 [233320]
    Other proteins in same PDB: d3qesa2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dgt
30. Domain for 3qet:
  - Domain d3qeta1: 3qet A:1-375 [233322]
    Other proteins in same PDB: d3qeta2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, ttp
31. Domains for 3rma:
  1. Domain d3rmaa1: 3rma A:1-375 [249140]
    Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
    automated match to d3l8bb1
    protein/DNA complex
  2. Domain d3rmab1: 3rma B:1-375 [249142]
    Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
    automated match to d3l8bb1
    protein/DNA complex
  3. Domain d3rmac1: 3rma C:1-375 [249144]
    Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
    automated match to d3l8bb1
    protein/DNA complex
  4. Domain d3rmad1: 3rma D:1-375 [249146]
    Other proteins in same PDB: d3rmaa2, d3rmab2, d3rmac2, d3rmad2
    automated match to d3l8bb1
    protein/DNA complex
32. Domains for 3rmb:
  1. Domain d3rmba1: 3rmb A:1-375 [249148]
    Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  2. Domain d3rmbb1: 3rmb B:1-375 [249150]
    Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  3. Domain d3rmbc1: 3rmb C:1-375 [249152]
    Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  4. Domain d3rmbd1: 3rmb D:1-375 [249154]
    Other proteins in same PDB: d3rmba2, d3rmbb2, d3rmbc2, d3rmbd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
33. Domains for 3rmc:
  1. Domain d3rmca1: 3rmc A:1-375 [249156]
    Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
    automated match to d3uiqa1
    protein/DNA complex
  2. Domain d3rmcb1: 3rmc B:1-375 [249158]
    Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
    automated match to d3uiqa1
    protein/DNA complex
  3. Domain d3rmcc1: 3rmc C:1-375 [249160]
    Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
    automated match to d3uiqa1
    protein/DNA complex
  4. Domain d3rmcd1: 3rmc D:1-375 [249162]
    Other proteins in same PDB: d3rmca2, d3rmcb2, d3rmcc2, d3rmcd2
    automated match to d3uiqa1
    protein/DNA complex
34. Domains for 3rmd:
  1. Domain d3rmda1: 3rmd A:1-375 [249164]
    Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with dtp
  2. Domain d3rmdb1: 3rmd B:1-375 [249166]
    Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with dtp
  3. Domain d3rmdc1: 3rmd C:1-375 [249168]
    Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with dtp
  4. Domain d3rmdd1: 3rmd D:1-375 [249170]
    Other proteins in same PDB: d3rmda2, d3rmdb2, d3rmdc2, d3rmdd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with dtp
35. Domain for 3s9h:
  - Domain d3s9ha1: 3s9h A:1-375 [249316]
    Other proteins in same PDB: d3s9ha2
    automated match to d3qeta1
    protein/DNA complex; complexed with ca, dup; mutant
36. Domain for 3scx:
  - Domain d3scxa1: 3scx A:1-375 [233528]
    Other proteins in same PDB: d3scxa2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dup; mutant
37. Domain for 3si6:
  - Domain d3si6a1: 3si6 A:1-375 [249474]
    Other proteins in same PDB: d3si6a2
    automated match to d3scxa1
    protein/DNA complex; complexed with dup, mg; mutant
38. Domain for 3sjj:
  - Domain d3sjja1: 3sjj A:1-375 [249486]
    Other proteins in same PDB: d3sjja2
    automated match to d3scxa1
    protein/DNA complex; complexed with dup, mn; mutant
39. Domain for 3snn:
  - Domain d3snna1: 3snn A:1-375 [249530]
    Other proteins in same PDB: d3snna2
    automated match to d3scxa1
    protein/DNA complex; complexed with dcp, mg
40. Domain for 3spy:
  - Domain d3spya1: 3spy A:1-375 [233589]
    Other proteins in same PDB: d3spya2
    automated match to d1ih7a1
    protein/DNA complex; complexed with mg, upc
41. Domain for 3spz:
  - Domain d3spza1: 3spz A:1-375 [233591]
    Other proteins in same PDB: d3spza2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, upc
42. Domain for 3sq0:
  - Domain d3sq0a1: 3sq0 A:1-375 [249550]
    Other proteins in same PDB: d3sq0a2
    automated match to d3qeta1
    protein/DNA complex; complexed with dup, mn
43. Domain for 3sq1:
  - Domain d3sq1a1: 3sq1 A:1-375 [233593]
    Other proteins in same PDB: d3sq1a2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dup
44. Domain for 3sq2:
  - Domain d3sq2a1: 3sq2 A:1-375 [233595]
    Other proteins in same PDB: d3sq2a2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, ttp
45. Domain for 3sq4:
  - Domain d3sq4a1: 3sq4 A:1-375 [249552]
    Other proteins in same PDB: d3sq4a2
    automated match to d3sq2a1
    protein/DNA complex; complexed with ca, ttp
46. Domain for 3sun:
  - Domain d3suna1: 3sun A:1-375 [233638]
    Other proteins in same PDB: d3suna2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, ttp
47. Domain for 3suo:
  - Domain d3suoa1: 3suo A:1-375 [233640]
    Other proteins in same PDB: d3suoa2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, ttp
48. Domain for 3sup:
  - Domain d3supa1: 3sup A:1-375 [249578]
    Other proteins in same PDB: d3supa2
    automated match to d3lzja1
    protein/DNA complex; complexed with ca, dcp
49. Domain for 3suq:
  - Domain d3suqa1: 3suq A:1-375 [249580]
    Other proteins in same PDB: d3suqa2
    automated match to d3ncia1
    protein/DNA complex; complexed with ca, dcp
50. Domains for 3tae:
  1. Domain d3taea1: 3tae A:1-375 [249841]
    Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  2. Domain d3taeb1: 3tae B:1-375 [249843]
    Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  3. Domain d3taec1: 3tae C:1-375 [249845]
    Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  4. Domain d3taed1: 3tae D:1-375 [249847]
    Other proteins in same PDB: d3taea2, d3taeb2, d3taec2, d3taed2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
51. Domains for 3tag:
  1. Domain d3taga1: 3tag A:1-375 [249849]
    Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  2. Domain d3tagb1: 3tag B:1-375 [249851]
    Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  3. Domain d3tagc1: 3tag C:1-375 [249853]
    Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
  4. Domain d3tagd1: 3tag D:1-375 [249855]
    Other proteins in same PDB: d3taga2, d3taga3, d3tagb2, d3tagc2, d3tagd2
    automated match to d3l8bb1
    protein/DNA complex; complexed with so4
52. Domain for 3uiq:
  - Domain d3uiqa1: 3uiq A:1-375 [217392]
    Other proteins in same PDB: d3uiqa2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dup
53. Domain for 4dtj:
  - Domain d4dtja1: 4dtj A:1-375 [220019]
    Other proteins in same PDB: d4dtja2
    automated match to d3cq8a1
    protein/DNA complex; complexed with ca, ttp
54. Domain for 4dtm:
  - Domain d4dtma1: 4dtm A:1-375 [220021]
    Other proteins in same PDB: d4dtma2
    automated match to d3cq8a1
    protein/DNA complex; complexed with ca, dcp
55. Domain for 4dtn:
  - Domain d4dtna1: 4dtn A:1-375 [251550]
    Other proteins in same PDB: d4dtna2
    automated match to d3qeta1
    protein/DNA complex; complexed with ca, dtp
56. Domain for 4dto:
  - Domain d4dtoa1: 4dto A:1-375 [251552]
    Other proteins in same PDB: d4dtoa2
    automated match to d3qeta1
    protein/DNA complex; complexed with ca, dcp
57. Domain for 4dtp:
  - Domain d4dtpa1: 4dtp A:1-375 [251554]
    Other proteins in same PDB: d4dtpa2
    automated match to d3qeta1
    protein/DNA complex; complexed with ca, dgt
58. Domain for 4dtr:
  - Domain d4dtra1: 4dtr A:1-375 [251556]
    Other proteins in same PDB: d4dtra2
    automated match to d3qesa1
    protein/DNA complex; complexed with ca, dtp
59. Domain for 4dts:
  - Domain d4dtsa1: 4dts A:1-375 [251558]
    Other proteins in same PDB: d4dtsa2
    automated match to d3qesa1
    protein/DNA complex; complexed with ca, dcp
60. Domain for 4dtu:
  - Domain d4dtua1: 4dtu A:1-375 [251560]
    Other proteins in same PDB: d4dtua2
    automated match to d3qesa1
    protein/DNA complex; complexed with ca, dgt
61. Domain for 4dtx:
  - Domain d4dtxa1: 4dtx A:1-375 [251562]
    Other proteins in same PDB: d4dtxa2
    automated match to d3qesa1
    protein/DNA complex; complexed with ca, ttp
62. Domain for 4du1:
  - Domain d4du1a1: 4du1 A:1-375 [220027]
    Other proteins in same PDB: d4du1a2
    automated match to d1ig9a1
    protein/DNA complex; complexed with ca, dtp
63. Domain for 4du3:
  - Domain d4du3a1: 4du3 A:1-375 [220029]
    Other proteins in same PDB: d4du3a2
    automated match to d1ig9a1
    protein/DNA complex; complexed with ca, dtp
64. Domain for 4du4:
  - Domain d4du4a1: 4du4 A:1-375 [220031]
    Other proteins in same PDB: d4du4a2
    automated match to d1q9xa1
    protein/DNA complex; complexed with ca, dtp
65. Domain for 4e3s:
  - Domain d4e3sa1: 4e3s A:1-375 [251651]
    Other proteins in same PDB: d4e3sa2
    automated match to d3qeta1
    protein/DNA complex; complexed with ca, qtp
66. Domain for 4fj5:
  - Domain d4fj5a1: 4fj5 A:1-375 [251985]
    Other proteins in same PDB: d4fj5a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dtp
67. Domain for 4fj7:
  - Domain d4fj7a1: 4fj7 A:1-375 [251987]
    Other proteins in same PDB: d4fj7a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dgt
68. Domain for 4fj8:
  - Domain d4fj8a1: 4fj8 A:1-375 [251989]
    Other proteins in same PDB: d4fj8a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dcp
69. Domain for 4fj9:
  - Domain d4fj9a1: 4fj9 A:1-375 [251991]
    Other proteins in same PDB: d4fj9a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, ttp
70. Domain for 4fjg:
  - Domain d4fjga1: 4fjg A:1-375 [251993]
    Other proteins in same PDB: d4fjga2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dtp
71. Domain for 4fjh:
  - Domain d4fjha1: 4fjh A:1-375 [251995]
    Other proteins in same PDB: d4fjha2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dgt
72. Domain for 4fji:
  - Domain d4fjia1: 4fji A:1-375 [251997]
    Other proteins in same PDB: d4fjia2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dcp
73. Domain for 4fjj:
  - Domain d4fjja1: 4fjj A:1-375 [251999]
    Other proteins in same PDB: d4fjja2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, ttp
74. Domain for 4fjk:
  - Domain d4fjka1: 4fjk A:1-375 [252001]
    Other proteins in same PDB: d4fjka2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dtp
75. Domain for 4fjl:
  - Domain d4fjla1: 4fjl A:1-375 [252003]
    Other proteins in same PDB: d4fjla2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dgt
76. Domain for 4fjm:
  - Domain d4fjma1: 4fjm A:1-375 [252005]
    Other proteins in same PDB: d4fjma2
    automated match to d3qesa1
    protein/DNA complex; complexed with ca, dcp
77. Domain for 4fjn:
  - Domain d4fjna1: 4fjn A:1-375 [252007]
    Other proteins in same PDB: d4fjna2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, ttp
78. Domain for 4fjx:
  - Domain d4fjxa1: 4fjx A:1-375 [252009]
    Other proteins in same PDB: d4fjxa2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dtp
79. Domain for 4fk0:
  - Domain d4fk0a1: 4fk0 A:1-375 [252019]
    Other proteins in same PDB: d4fk0a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dcp
80. Domain for 4fk2:
  - Domain d4fk2a1: 4fk2 A:1-375 [252021]
    Other proteins in same PDB: d4fk2a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, ttp
81. Domain for 4fk4:
  - Domain d4fk4a1: 4fk4 A:1-375 [252025]
    Other proteins in same PDB: d4fk4a2
    automated match to d3spza1
    protein/DNA complex; complexed with ca, dgt
82. Domain for 4i9l:
  - Domain d4i9la1: 4i9l A:1-375 [229484]
    Other proteins in same PDB: d4i9la2
    automated match to d1ih7a1
    complexed with cl, gmp, so4; mutant
83. Domain for 4j2a:
  - Domain d4j2aa1: 4j2a A:1-375 [237016]
    Other proteins in same PDB: d4j2aa2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, ttp
84. Domain for 4j2b:
  - Domain d4j2ba1: 4j2b A:1-375 [237014]
    Other proteins in same PDB: d4j2ba2
    automated match to d1ih7a1
    protein/DNA complex; complexed with atp, ca
85. Domain for 4j2e:
  - Domain d4j2ea1: 4j2e A:1-375 [237018]
    Other proteins in same PDB: d4j2ea2
    automated match to d1ih7a1
    protein/DNA complex; complexed with atp, ca
86. Domains for 4khn:
  1. Domain d4khna1: 4khn A:1-375 [235165]
    Other proteins in same PDB: d4khna2, d4khnb2
    automated match to d4khnb1
    protein/DNA complex; complexed with ca, gol, na, so4, xg4; mutant
  2. Domain d4khnb1: 4khn B:1-375 [228218]
    Other proteins in same PDB: d4khna2, d4khnb2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, gol, na, so4, xg4; mutant
87. Domain for 4khq:
  - Domain d4khqa1: 4khq A:1-375 [228216]
    Other proteins in same PDB: d4khqa2
    automated match to d1ih7a1
    protein/DNA complex; complexed with ca, dup, na; mutant
88. Domain for 4khs:
  - Domain d4khsa1: 4khs A:1-375 [235169]
    Other proteins in same PDB: d4khsa2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, cl, na, ttp; mutant
89. Domain for 4khu:
  - Domain d4khua1: 4khu A:1-375 [235171]
    Other proteins in same PDB: d4khua2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, na, ttp; mutant
90. Domain for 4khw:
  - Domain d4khwa1: 4khw A:1-375 [235173]
    Other proteins in same PDB: d4khwa2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, na, ttp; mutant
91. Domain for 4khy:
  - Domain d4khya1: 4khy A:1-375 [235167]
    Other proteins in same PDB: d4khya2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, na, ttp; mutant
92. Domain for 4ki4:
  - Domain d4ki4a1: 4ki4 A:1-375 [235175]
    Other proteins in same PDB: d4ki4a2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, gol, na, ttp; mutant
93. Domain for 4ki6:
  - Domain d4ki6a1: 4ki6 A:1-375 [235177]
    Other proteins in same PDB: d4ki6a2
    automated match to d4khqa1
    protein/DNA complex; complexed with ca, na, po4, ttp; mutant
Bacteriophage T4 [TaxId:10665] [53126] (2 PDB entries)
additional N-terminal subdomain contains rudimental OB-fold
1. Domains for 1noy:
  1. Domain d1noya_: 1noy A: [33713]
    exonuclease domain only
    protein/DNA complex; complexed with mn, zn
  2. Domain d1noyb_: 1noy B: [33714]
    exonuclease domain only
    protein/DNA complex; complexed with mn, zn
2. Domains for 1noz:
  1. Domain d1noza_: 1noz A: [33715]
    exonuclease domain only
  2. Domain d1nozb_: 1noz B: [33716]
    exonuclease domain only
Desulfurococcus tok [TaxId:108142] [53130] (2 PDB entries)
additional N-terminal subdomain contains rudimental OB-fold but complete ferredoxin-like fold
1. Domain for 1d5a:
  - Domain d1d5aa1: 1d5a A:1-347 [33723]
    Other proteins in same PDB: d1d5aa2
    complexed with mg, so4
2. Domain for 1qqc:
  - Domain d1qqca1: 1qqc A:1-347 [33724]
    Other proteins in same PDB: d1qqca2
    complexed with mg, so4
Escherichia coli [TaxId:562] [102482] (1 PDB entry)
DNA polymerase II, additional N-terminal subdomain has an OB-fold with a ferredoxin-like fold insertion
- Domain for 1q8i:
  - Domain d1q8ia1: 1q8i A:2-389 [96208]
    Other proteins in same PDB: d1q8ia2

Pyrococcus kodakaraensis [TaxId:311400] [53131] (2 PDB entries)
Uniprot P56689 1-758 # 93% sequence identity; Thermococcus kodakarensis KOD1 TaxID: 69014
additional N-terminal subdomain contains rudimental OB-fold but complete ferredoxin-like fold

Domain for 1wn7:
- Domain d1wn7a1: 1wn7 A:1-347 [121088]
  Other proteins in same PDB: d1wn7a2
  complexed with gol, ni; mutant
Domain for 1wns:
- Domain d1wnsa1: 1wns A:1-347 [109437]
  Other proteins in same PDB: d1wnsa2

Sulfolobus solfataricus [TaxId:2287] [117647] (1 PDB entry)
Uniprot P26811 40-864
- Domain for 1s5j:
  - Domain d1s5ja1: 1s5j A:40-449 [112040]
    Other proteins in same PDB: d1s5ja2
    complexed with mg, so4
Thermococcus gorgonarius [TaxId:71997] [53128] (1 PDB entry)
additional N-terminal subdomain contains rudimental OB-fold but complete ferredoxin-like fold
- Domain for 1tgo:
  - Domain d1tgoa1: 1tgo A:1-347 [33721]
    Other proteins in same PDB: d1tgoa2
Thermococcus sp., 9on-7 [TaxId:35749] [53129] (1 PDB entry)
additional N-terminal subdomain contains rudimental OB-fold but complete ferredoxin-like fold
- Domain for 1qht:
  - Domain d1qhta1: 1qht A:1-347 [33722]
    Other proteins in same PDB: d1qhta2

More info for Protein Exonuclease domain of family B DNA polymerases from c.55.3.5: DnaQ-like 3'-5' exonuclease

Timeline for Protein Exonuclease domain of family B DNA polymerases from c.55.3.5: DnaQ-like 3'-5' exonuclease:

Protein Exonuclease domain of family B DNA polymerases from c.55.3.5: DnaQ-like 3'-5' exonuclease first appeared (with stable ids) in SCOP 1.55, called Protein Exonuclease domain of family B (archaeal and phage) DNA polymerases from c.55.3.5: DnaQ-like 3'-5' exonuclease
Protein Exonuclease domain of family B DNA polymerases from c.55.3.5: DnaQ-like 3'-5' exonuclease appears in SCOPe 2.06
Protein Exonuclease domain of family B DNA polymerases from c.55.3.5: DnaQ-like 3'-5' exonuclease appears in the current release, SCOPe 2.08